genome.fa.s4862.2.7.7.80.10.50.1000.8.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01004862.1 Hibiscus syriacus cultivar Beakdansim tig00010968_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2846896

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  8  of  13  ( 1530 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1470398--1470446	24	2.0	24	81	14	57	30	4	14	51	1.61
1470701--1470873	92	1.9	92	84	2	231	28	14	12	43	1.82
1470850--1470893	20	2.2	20	100	0	88	11	13	13	61	1.57
1470755--1470984	112	2.1	112	95	0	415	25	13	13	47	1.79
1470870--1471167	92	3.2	92	93	0	490	29	12	13	44	1.80
1470701--1471080	203	1.9	204	91	2	631	28	13	13	44	1.82
1471517--1471585	24	2.9	25	79	18	76	52	2	1	43	1.25
1471585--1471671	14	6.3	14	70	12	56	47	2	2	48	1.27
1471601--1471675	29	2.7	28	73	22	70	48	1	1	49	1.18
1471723--1471962	87	2.8	86	92	0	381	33	15	7	42	1.76
1471798--1471848	23	2.2	23	89	0	75	35	21	5	37	1.78
1471885--1471934	23	2.2	22	85	3	64	36	22	4	38	1.73
1474072--1474134	29	2.1	29	82	8	74	28	25	14	31	1.95
1474456--1474501	18	2.6	17	80	10	56	32	6	2	58	1.36
1476160--1476194	18	1.9	18	94	0	61	25	17	22	34	1.96
1476639--1476702	24	2.7	23	72	15	60	23	3	4	68	1.23
1481049--1481097	22	2.4	20	83	12	64	26	6	24	42	1.78
1485524--1485568	22	2.0	22	86	0	63	17	2	24	55	1.53
1494815--1494859	22	2.0	22	87	8	65	44	2	4	48	1.35
1495643--1495687	24	1.9	24	81	4	56	42	0	2	55	1.12
1496984--1497017	16	2.1	17	88	5	52	41	17	2	38	1.65
1498954--1498983	10	3.0	10	100	0	60	40	30	0	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1501471--1501520	16	3.2	17	78	16	63	52	0	0	48	1.00
1505635--1505858	42	5.5	42	68	10	124	33	17	20	28	1.95
1505612--1505766	83	1.9	83	81	5	188	30	16	23	29	1.96
1505711--1505865	82	1.9	83	89	4	242	36	18	20	25	1.95
1505739--1505871	42	3.2	42	71	15	132	35	18	18	28	1.94
1505885--1505995	41	2.7	41	88	0	150	36	10	18	35	1.85
1509226--1509259	11	3.1	11	91	8	52	11	14	0	73	1.10
1509233--1509271	11	3.5	11	89	10	53	17	12	0	69	1.19
1509603--1509652	22	2.3	22	86	3	75	84	10	4	2	0.84
1519639--1519703	21	3.1	21	80	8	78	38	21	38	1	1.63
1519731--1519783	21	2.5	21	87	6	72	50	18	22	7	1.72
1520265--1520454	43	4.5	43	75	0	159	32	25	18	23	1.97
1520160--1520460	43	7.1	43	71	7	152	32	24	17	25	1.97
1520530--1520566	15	2.7	14	84	15	51	8	24	32	35	1.85
1521747--1521906	31	5.2	31	94	0	284	33	15	12	38	1.85
1521849--1521902	16	3.4	16	67	23	51	31	16	12	38	1.87
1522415--1522623	64	3.3	65	83	4	228	27	18	21	33	1.96
1523516--1523570	26	2.1	26	83	6	67	52	16	3	27	1.60
1527202--1527245	3	14.7	3	100	0	88	31	0	0	68	0.90
1528362--1528408	24	1.9	24	86	4	67	27	4	0	68	1.08
1529968--1530005	7	5.3	7	82	17	51	13	2	0	84	0.73
1532938--1533013	13	6.2	12	73	20	59	78	0	19	1	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532941--1533013	33	2.2	33	79	16	80	79	0	19	1	0.81
1532938--1533013	34	2.3	32	82	10	91	78	0	19	1	0.81
1532942--1533013	27	2.7	27	76	17	80	79	0	19	1	0.81
1534545--1534726	51	3.5	52	88	1	260	38	17	22	21	1.93
1535192--1535297	54	2.0	54	90	0	167	36	13	24	25	1.92
1536164--1536371	73	2.8	73	93	0	344	31	15	14	37	1.88
1536368--1536696	123	2.7	123	91	0	514	39	17	17	24	1.91
1538287--1538330	19	2.2	19	84	8	52	27	2	0	70	0.99
1539734--1539768	15	2.3	15	90	0	52	48	5	8	37	1.58
1545476--1545545	37	1.9	36	85	8	97	48	4	0	47	1.21
1546633--1546670	19	2.0	20	85	15	53	50	13	18	18	1.78
1550251--1550366	57	2.0	57	81	1	133	43	15	6	33	1.73
1550266--1550480	58	3.7	56	70	10	139	40	13	8	37	1.75
1554819--1554899	29	2.8	29	76	16	78	71	4	3	19	1.20
1554988--1555030	21	2.0	22	86	4	61	60	9	9	20	1.55
1556226--1556463	123	1.9	123	87	1	352	25	16	16	41	1.89
1556484--1556747	36	7.3	35	69	12	151	36	11	19	32	1.88
1556488--1556797	73	4.3	73	88	3	403	38	11	18	31	1.87
1556905--1557307	6	67.5	6	98	1	783	17	0	33	49	1.46
1559219--1559389	89	1.9	89	84	3	229	32	14	18	34	1.91
1562760--1562816	2	28.5	2	100	0	114	50	0	0	49	1.00
1563111--1563152	22	2.0	20	86	9	57	61	7	9	21	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1563842--1563890	19	2.5	20	77	19	57	65	10	8	16	1.46
1566493--1566572	41	2.0	41	82	9	101	21	25	43	10	1.83
1569770--1569809	21	1.9	21	89	0	62	30	20	12	37	1.89
1570060--1570163	45	2.3	45	86	0	145	25	22	32	20	1.97
1573244--1573634	187	2.1	184	90	3	608	42	3	8	46	1.49
1575878--1575962	22	3.9	22	84	7	111	27	22	20	30	1.98
1578304--1578341	18	2.2	18	85	4	51	28	26	15	28	1.96
1578930--1579004	32	2.3	33	82	15	95	50	22	13	13	1.76
1578961--1579027	32	2.1	32	85	0	89	49	26	13	10	1.74
1579134--1579169	3	11.7	3	88	5	54	27	2	2	66	1.19
1580080--1580330	43	5.9	43	74	8	172	28	17	24	28	1.98
1580124--1580331	86	2.4	84	79	3	227	27	17	23	30	1.97
1580124--1580340	43	5.1	42	78	5	186	28	18	22	29	1.98
1581853--1582002	41	3.7	40	73	10	144	29	24	18	28	1.98
1581852--1582200	82	4.3	81	91	3	399	32	20	15	31	1.94
1581910--1582200	41	7.2	40	76	9	266	34	20	14	31	1.92
1581910--1582230	82	3.9	82	88	4	420	33	20	14	31	1.93
1582864--1582932	20	3.8	19	78	10	65	73	0	4	21	1.00
1582864--1582892	5	5.8	5	100	0	58	82	0	0	17	0.66
1582922--1582993	38	1.9	37	83	8	92	63	9	9	16	1.50
1584870--1584912	14	3.0	14	86	3	59	37	20	13	27	1.91
1586977--1587081	19	5.2	19	79	13	102	35	6	26	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587373--1587402	6	5.0	6	95	0	51	3	16	46	33	1.64
1594674--1594820	36	4.1	35	91	5	231	16	23	25	34	1.95
1597104--1597190	13	6.6	13	70	18	56	72	2	3	21	1.11
1597098--1597157	21	2.9	21	80	9	70	76	3	3	16	1.05
1600817--1600933	45	2.6	45	82	2	119	42	19	14	23	1.88
1600950--1602216	38	33.2	38	85	4	1595	41	16	17	25	1.90
1601766--1601865	49	2.0	49	86	0	137	43	15	17	25	1.87
1601728--1602031	75	3.8	84	84	6	309	43	15	15	25	1.86
1603386--1603518	43	3.0	43	75	7	124	30	22	12	33	1.92
1610149--1610215	21	3.2	20	89	4	89	11	13	22	52	1.73
1610946--1611005	24	2.5	23	81	10	59	33	11	1	53	1.47
1610976--1611016	18	2.2	19	91	4	66	39	14	0	46	1.45
1610995--1611069	24	3.1	25	71	22	70	40	13	0	46	1.43
1611016--1611074	22	2.6	22	76	10	66	40	13	1	44	1.54
1611088--1611121	16	2.2	16	89	5	52	79	8	0	11	0.94
1611579--1611675	45	2.2	45	86	3	133	40	18	16	24	1.91
1612329--1612506	44	4.0	44	88	1	248	24	21	11	42	1.86
1612329--1612506	89	2.0	88	86	3	250	24	21	11	42	1.86
1613440--1613478	17	2.3	17	100	0	78	15	25	5	53	1.62
1614917--1615064	73	2.0	75	84	7	196	32	2	10	54	1.48
1615698--1615740	18	2.4	18	88	7	61	20	4	0	74	1.00
1623131--1623595	86	5.4	86	84	0	556	32	23	21	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624245--1624394	76	1.9	78	85	5	207	32	2	11	54	1.50
1625024--1625067	18	2.4	19	88	3	63	20	4	0	75	0.98
1625108--1625160	22	2.5	22	85	8	67	18	3	1	75	1.05
1625164--1625260	42	2.3	42	74	13	101	25	6	0	68	1.13
1627177--1627620	56	8.0	56	88	2	637	34	18	11	35	1.87
1627177--1627620	167	2.7	168	90	1	680	34	18	11	35	1.87
1632974--1633563	56	10.6	56	88	2	809	36	17	11	35	1.85
1632969--1633563	222	2.7	222	87	3	833	36	17	11	35	1.85
1632969--1633566	278	2.2	276	88	3	869	36	17	11	35	1.85
1639098--1639137	21	1.9	21	89	0	62	40	20	7	32	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13